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The need for cost\u2010effective biodiversity monitoring methods fostered advances in this technique. One question that arises is which sample type provides a better diet representation.<\/jats:p><\/jats:list-item>\n\n<jats:list-item><jats:p>Therefore, with this study, we intended to evaluate if there were differences in diet estimates according to the section of the gastrointestinal tract analysed and which section(s) provided the best diet representation. Additionally, we intended to infer the ecological\/economic impacts of an invader as a model of the potential effects in an originally mammal\u2010free ecosystem.<\/jats:p><\/jats:list-item>\n\n<jats:list-item><jats:p>We examined the gut contents of the house mouse <jats:italic>Mus musculus<\/jats:italic> introduced to Cabo Verde, considering three sections: stomach, small intestine, and large intestine. We applied a DNA\u2010metabarcoding approach using two genetic markers, one specific for plants and another for invertebrates.<\/jats:p><\/jats:list-item>\n\n<jats:list-item><jats:p>We showed that this invader consumed 131 taxa (73 plants and 58 invertebrates). We obtained significant differences in the composition of two of the three sections, with a higher incidence of invertebrates in the stomach and plants in the intestines. This may be due to stomach inhibitors acting on plants and\/or to faster absorption of soft\u2010body invertebrates compared to the plant fibers in the intestines. We verified that the impact of this invader in the ecosystem is predominantly negative, as at least 50% of the ingested items were native, endemic, or economically important taxa, and only 19% of the diet items were exotics.<\/jats:p><\/jats:list-item>\n\n<jats:list-item><jats:p>Overall, results showed the need to analyse only two gastrointestinal tract sections to obtain robust diet data, increasing the cost\u2010effectiveness of the method. Furthermore, by uncovering the native taxa most frequently preyed on by mice, this DNA\u2010metabarcoding approach allowed us to evaluate efficiently which are at the highest risk.<\/jats:p><\/jats:list-item>\n<\/jats:list>\n<\/jats:p>","DOI":"10.1002\/ece3.8638","type":"journal-article","created":{"date-parts":[[2022,3,8]],"date-time":"2022-03-08T04:38:52Z","timestamp":1646714332000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":13,"title":["Trust your guts? The effect of gut section on diet composition and impact of <i>Mus musculus<\/i> on islands using metabarcoding"],"prefix":"10.1002","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0353-7885","authenticated-orcid":false,"given":"Catarina J.","family":"Pinho","sequence":"first","affiliation":[{"name":"CIBIO Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, Campus de Vair\u00e3o, Universidade do Porto Vair\u00e3o Portugal"},{"name":"Departamento de Biologia Faculdade de Ci\u00eancias da Universidade do Porto Porto Portugal"},{"name":"BIOPOLIS Program in Genomics, Biodiversity and Land Planning CIBIO, Campus de Vair\u00e3o Vair\u00e3o Portugal"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3938-1560","authenticated-orcid":false,"given":"Evandro P.","family":"Lopes","sequence":"additional","affiliation":[{"name":"CIBIO Centro de Investiga\u00e7\u00e3o em 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